Identify divergent loci from tag clusters.

Identify divergent loci from tag clusters.

Usage

divergentLoci(
  object,
  ctss,
  max_gap = 400,
  win_size = 200,
  inputAssay = "counts"
)

Arguments

object

A GRanges object containing the tag clusters.

ctss

A RangedSummarizedExperiment resulting from CAGEfightR::quantifyCTSSs().

max_gap

Maximum distance between tag clusters to be considered part of a divergent locus.

win_size

Size of the flanking windows around the midpoint of the divergent locus.

inputAssay

The assay to use for quantification.

Value

A GRanges object containing the divergent loci.